Results
Contents
Results#
Data associated with the results presented here can be found at: https://github.com/courtois-neuromod/anat-processing/releases.
Brain#
This section presents results of brain MRI data. Below are quantitative T1 values computed using the MP2RAGE and the MTsat methods. These values are averaged within the gray matter and white matter masks.
Gray matter qMRI#
Code imports#
# Python imports
from IPython.display import clear_output
from pathlib import Path
import numpy as np
import pandas as pd
# Import custom tools
from tools.data import Data
from tools.plot import Plot
Download data#
data_type = 'brain'
release_version = 'latest'
dataset = Data(data_type)
dataset.download(release_version)
Load data and plot it#
dataset.load()
fig_gm = Plot(dataset, plot_name = 'new-fig-2')
fig_gm.title = 'Brain gray matter qMRI microstructure'
# If you're running this notebook in a Jupyter Notebook (eg, on MyBinder), change 'jupyter-book' to 'notebook'
fig_gm.display('jupyter-book', tissue = 'GM')
subject session acquisition metric unit label mean \
0 1 1 MP2RAGE T1map second GM 1.48850
1 1 1 MP2RAGE T1map second WM 0.94136
2 1 2 MP2RAGE T1map second GM 1.46510
3 1 2 MP2RAGE T1map second WM 0.94620
4 1 3 MP2RAGE T1map second GM 1.28500
.. ... ... ... ... ... ... ...
123 6 4 NaN MTRmap percent WM 53.09780
124 6 4 MTS MTsat arbitrary GM 8.51250
125 6 4 MTS MTsat arbitrary WM 8.55280
126 6 4 MTS T1map second GM 1.53840
127 6 4 MTS T1map second WM 1.01220
std median iqr ... q3 \
0 0.15877 1.48480 0.18402 ... 1.58070
1 0.17416 0.87470 0.11626 ... 0.95667
2 0.17762 1.47210 0.18738 ... 1.56700
3 0.18076 0.87387 0.12917 ... 0.96739
4 0.41732 1.41230 0.59626 ... 1.62630
.. ... ... ... ... ...
123 6.36400 54.32840 4.36430 ... 56.20390
124 199.60140 1.72020 0.88756 ... 2.24390
125 235.75970 4.07040 1.01800 ... 4.46410
126 2.03670 1.73570 1.29400 ... 2.10790
127 0.41837 1.03040 0.41547 ... 1.25520
map \
0 /Users/agah/Desktop/KuzuData/anat/derivatives/...
1 /Users/agah/Desktop/KuzuData/anat/derivatives/...
2 /Users/agah/Desktop/KuzuData/anat/derivatives/...
3 /Users/agah/Desktop/KuzuData/anat/derivatives/...
4 /Users/agah/Desktop/KuzuData/anat/derivatives/...
.. ...
123 /Users/agah/Desktop/KuzuData/anat/derivatives/...
124 /Users/agah/Desktop/KuzuData/anat/derivatives/...
125 /Users/agah/Desktop/KuzuData/anat/derivatives/...
126 /Users/agah/Desktop/KuzuData/anat/derivatives/...
127 /Users/agah/Desktop/KuzuData/anat/derivatives/...
mask software \
0 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
1 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
2 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
3 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
4 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
.. ... ...
123 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
124 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
125 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
126 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
127 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
date map_basedon \
0 2021-07-24 21:40:04 sub-01_ses-001_UNIT1.nii.gz
1 2021-07-24 21:40:04 sub-01_ses-001_UNIT1.nii.gz
2 2021-07-24 21:40:05 sub-01_ses-002_UNIT1.nii.gz
3 2021-07-24 21:40:05 sub-01_ses-002_UNIT1.nii.gz
4 2021-07-24 21:42:37 sub-01_ses-003_UNIT1.nii.gz
.. ... ...
123 2021-07-24 22:57:39 sub-06_ses-004_acq-MTon_MTS_aligned.nii.gz|sub...
124 2021-07-24 23:19:58 sub-06_ses-004_acq-MTon_MTS_aligned.nii.gz|sub...
125 2021-07-24 23:19:58 sub-06_ses-004_acq-MTon_MTS_aligned.nii.gz|sub...
126 2021-07-24 23:19:58 sub-06_ses-004_acq-MTon_MTS_aligned.nii.gz|sub...
127 2021-07-24 23:19:58 sub-06_ses-004_acq-MTon_MTS_aligned.nii.gz|sub...
runtime OS \
0 Octave 5.2.0 x86_64-pc-linux-gnu
1 Octave 5.2.0 x86_64-pc-linux-gnu
2 Octave 5.2.0 x86_64-pc-linux-gnu
3 Octave 5.2.0 x86_64-pc-linux-gnu
4 Octave 5.2.0 x86_64-pc-linux-gnu
.. ... ...
123 Octave 5.2.0 x86_64-pc-linux-gnu
124 Octave 5.2.0 x86_64-pc-linux-gnu
125 Octave 5.2.0 x86_64-pc-linux-gnu
126 Octave 5.2.0 x86_64-pc-linux-gnu
127 Octave 5.2.0 x86_64-pc-linux-gnu
map_reference data_type
0 https://doi.org/10.1016/j.neuroimage.2009.10.002 derivative
1 https://doi.org/10.1016/j.neuroimage.2009.10.002 derivative
2 https://doi.org/10.1016/j.neuroimage.2009.10.002 derivative
3 https://doi.org/10.1016/j.neuroimage.2009.10.002 derivative
4 https://doi.org/10.1016/j.neuroimage.2009.10.002 derivative
.. ... ...
123 NaN derivative
124 https://doi.org/10.1002/mrm.21732 derivative
125 https://doi.org/10.1002/mrm.21732 derivative
126 https://doi.org/10.1002/mrm.21732 derivative
127 https://doi.org/10.1002/mrm.21732 derivative
[128 rows x 23 columns]
White matter qMRI#
fig_wm = Plot(dataset, plot_name = 'new-fig-4')
fig_wm.title = 'Brain white matter qMRI microstructure'
# If you're running this notebook in a Jupyter Notebook (eg, on MyBinder), change 'jupyter-book' to 'notebook'
fig_wm.display('jupyter-book', tissue = 'WM')
subject session acquisition metric unit label mean \
0 1 1 MP2RAGE T1map second GM 1.48850
1 1 1 MP2RAGE T1map second WM 0.94136
2 1 2 MP2RAGE T1map second GM 1.46510
3 1 2 MP2RAGE T1map second WM 0.94620
4 1 3 MP2RAGE T1map second GM 1.28500
.. ... ... ... ... ... ... ...
123 6 4 NaN MTRmap percent WM 53.09780
124 6 4 MTS MTsat arbitrary GM 8.51250
125 6 4 MTS MTsat arbitrary WM 8.55280
126 6 4 MTS T1map second GM 1.53840
127 6 4 MTS T1map second WM 1.01220
std median iqr ... q3 \
0 0.15877 1.48480 0.18402 ... 1.58070
1 0.17416 0.87470 0.11626 ... 0.95667
2 0.17762 1.47210 0.18738 ... 1.56700
3 0.18076 0.87387 0.12917 ... 0.96739
4 0.41732 1.41230 0.59626 ... 1.62630
.. ... ... ... ... ...
123 6.36400 54.32840 4.36430 ... 56.20390
124 199.60140 1.72020 0.88756 ... 2.24390
125 235.75970 4.07040 1.01800 ... 4.46410
126 2.03670 1.73570 1.29400 ... 2.10790
127 0.41837 1.03040 0.41547 ... 1.25520
map \
0 /Users/agah/Desktop/KuzuData/anat/derivatives/...
1 /Users/agah/Desktop/KuzuData/anat/derivatives/...
2 /Users/agah/Desktop/KuzuData/anat/derivatives/...
3 /Users/agah/Desktop/KuzuData/anat/derivatives/...
4 /Users/agah/Desktop/KuzuData/anat/derivatives/...
.. ...
123 /Users/agah/Desktop/KuzuData/anat/derivatives/...
124 /Users/agah/Desktop/KuzuData/anat/derivatives/...
125 /Users/agah/Desktop/KuzuData/anat/derivatives/...
126 /Users/agah/Desktop/KuzuData/anat/derivatives/...
127 /Users/agah/Desktop/KuzuData/anat/derivatives/...
mask software \
0 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
1 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
2 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
3 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
4 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
.. ... ...
123 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
124 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
125 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
126 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
127 /Users/agah/Desktop/KuzuData/anat/derivatives/... qMRLab 2 5 0
date map_basedon \
0 2021-07-24 21:40:04 sub-01_ses-001_UNIT1.nii.gz
1 2021-07-24 21:40:04 sub-01_ses-001_UNIT1.nii.gz
2 2021-07-24 21:40:05 sub-01_ses-002_UNIT1.nii.gz
3 2021-07-24 21:40:05 sub-01_ses-002_UNIT1.nii.gz
4 2021-07-24 21:42:37 sub-01_ses-003_UNIT1.nii.gz
.. ... ...
123 2021-07-24 22:57:39 sub-06_ses-004_acq-MTon_MTS_aligned.nii.gz|sub...
124 2021-07-24 23:19:58 sub-06_ses-004_acq-MTon_MTS_aligned.nii.gz|sub...
125 2021-07-24 23:19:58 sub-06_ses-004_acq-MTon_MTS_aligned.nii.gz|sub...
126 2021-07-24 23:19:58 sub-06_ses-004_acq-MTon_MTS_aligned.nii.gz|sub...
127 2021-07-24 23:19:58 sub-06_ses-004_acq-MTon_MTS_aligned.nii.gz|sub...
runtime OS \
0 Octave 5.2.0 x86_64-pc-linux-gnu
1 Octave 5.2.0 x86_64-pc-linux-gnu
2 Octave 5.2.0 x86_64-pc-linux-gnu
3 Octave 5.2.0 x86_64-pc-linux-gnu
4 Octave 5.2.0 x86_64-pc-linux-gnu
.. ... ...
123 Octave 5.2.0 x86_64-pc-linux-gnu
124 Octave 5.2.0 x86_64-pc-linux-gnu
125 Octave 5.2.0 x86_64-pc-linux-gnu
126 Octave 5.2.0 x86_64-pc-linux-gnu
127 Octave 5.2.0 x86_64-pc-linux-gnu
map_reference data_type
0 https://doi.org/10.1016/j.neuroimage.2009.10.002 derivative
1 https://doi.org/10.1016/j.neuroimage.2009.10.002 derivative
2 https://doi.org/10.1016/j.neuroimage.2009.10.002 derivative
3 https://doi.org/10.1016/j.neuroimage.2009.10.002 derivative
4 https://doi.org/10.1016/j.neuroimage.2009.10.002 derivative
.. ... ...
123 NaN derivative
124 https://doi.org/10.1002/mrm.21732 derivative
125 https://doi.org/10.1002/mrm.21732 derivative
126 https://doi.org/10.1002/mrm.21732 derivative
127 https://doi.org/10.1002/mrm.21732 derivative
[128 rows x 23 columns]
Spinal cord#
Spinal cord cross-sectional area#
Download data#
data_type = 'spine'
release_version = 'latest'
dataset = Data(data_type)
dataset.download(release_version)
Load data plot it#
dataset.load()
fig_spine = Plot(dataset, plot_name = 'new-fig')
fig_spine.title = 'Spinal cord CSA [T<sub>1</sub>w/T<sub>2</sub>w]'
# If you're running this notebook in a Jupyter Notebook (eg, on MyBinder), change 'jupyter-book' to 'notebook'
fig_spine.display('jupyter-book', tissue = 'WM')
{'T1w': Subject Session Timestamp \
1 1 1 2021-06-09 23:24:10
6 1 2 2021-06-09 23:24:19
0 1 3 2021-06-09 23:24:08
8 2 1 2021-06-09 23:41:15
10 2 2 2021-06-09 23:41:24
15 2 3 2021-06-09 23:50:43
12 2 4 2021-06-09 23:41:39
9 3 1 2021-06-09 23:41:20
13 3 2 2021-06-09 23:41:42
11 3 3 2021-06-09 23:41:39
16 3 4 2021-06-09 23:55:17
17 4 2 2021-06-09 23:55:38
18 4 3 2021-06-09 23:55:53
4 5 1 2021-06-09 23:24:18
14 5 2 2021-06-09 23:41:45
2 6 1 2021-06-09 23:24:11
7 6 2 2021-06-09 23:24:21
5 6 3 2021-06-09 23:24:19
3 6 4 2021-06-09 23:24:12
SCT Version \
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6 git-jca/3413-run-batch-session-c41958db922273a...
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Filename Slice (I->S) VertLevel \
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6 /Users/julien/temp/neuromod/data_processed/sub... 47:86 2:3
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15 /Users/julien/temp/neuromod/data_processed/sub... 3:39 2:3
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5 /Users/julien/temp/neuromod/data_processed/sub... 38:75 2:3
3 /Users/julien/temp/neuromod/data_processed/sub... 58:95 2:3
MEAN(area) STD(area) MEAN(angle_AP) ... STD(diameter_AP) \
1 67.680431 1.598728 -4.254822 ... 0.225578
6 67.511930 1.726861 -6.577358 ... 0.186145
0 64.109061 3.127582 -4.670983 ... 0.464761
8 66.455289 4.204379 0.095829 ... 0.684070
10 73.688109 2.833139 -0.068322 ... 0.406465
15 73.905494 2.073274 -0.691532 ... 0.368828
12 69.405673 4.568637 -0.749008 ... 0.543059
9 59.927681 1.980624 -0.778617 ... 0.334499
13 60.228814 1.776652 -1.464265 ... 0.247391
11 60.621684 1.733616 -0.009478 ... 0.358365
16 59.915665 2.030933 -2.222570 ... 0.296578
17 59.717857 2.220913 2.572138 ... 0.399145
18 61.969221 2.026699 6.989458 ... 0.326731
4 53.010013 11.097434 -1.790824 ... 1.087683
14 64.717972 4.153035 -3.034680 ... 0.567947
2 62.953114 1.769023 -0.646246 ... 0.216321
7 64.823566 18.835219 13.113466 ... 1.159209
5 62.990802 2.049191 -2.338349 ... 0.298265
3 63.925810 2.765595 -1.132526 ... 0.248317
MEAN(diameter_RL) STD(diameter_RL) MEAN(eccentricity) \
1 10.843164 0.307774 0.680936
6 10.874612 0.275935 0.690540
0 10.640776 0.333651 0.690605
8 11.992443 0.585042 0.794791
10 12.065046 0.492764 0.756302
15 12.371408 0.639116 0.780126
12 12.227376 0.665839 0.796428
9 10.086060 0.232852 0.658816
13 10.486967 0.214164 0.716856
11 10.632869 0.308162 0.726909
16 10.445562 0.243935 0.716104
17 10.999128 0.354854 0.775108
18 10.956739 0.419218 0.753243
4 10.965275 0.675722 0.822167
14 11.448594 0.408139 0.769825
2 11.513113 0.470660 0.792890
7 9.503113 2.506067 0.576338
5 11.506661 0.596266 0.792194
3 11.727604 0.490648 0.803257
STD(eccentricity) MEAN(orientation) STD(orientation) MEAN(solidity) \
1 0.039585 2.149545 1.734302 0.980308
6 0.031751 2.855729 1.967201 0.977647
0 0.054994 3.202127 2.184708 0.976971
8 0.061804 2.234122 1.464966 0.963074
10 0.053939 2.367144 1.803792 0.966030
15 0.052688 1.694898 1.187327 0.963111
12 0.053488 2.145301 1.623586 0.958420
9 0.049798 2.475063 1.644264 0.972640
13 0.033921 1.850661 1.538691 0.966100
11 0.049649 1.681134 1.217510 0.970807
16 0.038919 2.551453 2.010580 0.972863
17 0.045832 2.195005 1.555832 0.972639
18 0.040568 2.095929 1.251544 0.976777
4 0.059414 4.036279 2.295310 0.952220
14 0.056204 4.103625 1.847953 0.966696
2 0.029588 1.260913 1.049494 0.965233
7 0.152557 22.042768 32.322329 0.968538
5 0.041279 1.614134 1.158783 0.973527
3 0.028672 1.754369 1.049329 0.971605
STD(solidity) SUM(length)
1 0.009615 36.167347
6 0.008612 32.528253
0 0.007494 34.565242
8 0.016533 31.424022
10 0.009791 32.356730
15 0.014391 30.534960
12 0.020529 31.442066
9 0.009458 28.297791
13 0.007298 27.236579
11 0.010769 28.389363
16 0.010084 28.329492
17 0.015228 29.056988
18 0.009427 28.313078
4 0.027352 33.355815
14 0.012619 32.529064
2 0.014776 30.644730
7 0.032237 10.122137
5 0.010495 31.364216
3 0.012450 31.247426
[19 rows x 24 columns], 'T2w': Subject Session Timestamp \
1 1 1 2021-06-09 23:20:54
4 1 2 2021-06-09 23:21:02
0 1 3 2021-06-09 23:20:52
8 2 1 2021-06-09 23:38:23
10 2 2 2021-06-09 23:38:28
15 2 3 2021-06-09 23:48:42
12 2 4 2021-06-09 23:38:42
9 3 1 2021-06-09 23:38:25
13 3 2 2021-06-09 23:38:46
11 3 3 2021-06-09 23:38:40
16 3 4 2021-06-09 23:53:25
17 4 2 2021-06-09 23:53:48
18 4 3 2021-06-09 23:54:02
5 5 1 2021-06-09 23:21:05
14 5 2 2021-06-09 23:38:47
2 6 1 2021-06-09 23:20:55
7 6 2 2021-06-09 23:21:12
6 6 3 2021-06-09 23:21:05
3 6 4 2021-06-09 23:21:00
SCT Version \
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18 /Users/julien/temp/neuromod/data_processed/sub... 164:199 2:3
5 /Users/julien/temp/neuromod/data_processed/sub... 159:196 2:3
14 /Users/julien/temp/neuromod/data_processed/sub... 154:191 2:3
2 /Users/julien/temp/neuromod/data_processed/sub... 158:194 2:3
7 /Users/julien/temp/neuromod/data_processed/sub... 164:200 2:3
6 /Users/julien/temp/neuromod/data_processed/sub... 166:201 2:3
3 /Users/julien/temp/neuromod/data_processed/sub... 167:203 2:3
MEAN(area) STD(area) MEAN(angle_AP) ... STD(diameter_AP) \
1 80.312877 1.602798 -3.958454 ... 0.148831
4 80.768423 1.967870 -5.074403 ... 0.180384
0 80.774162 3.246713 -3.760068 ... 0.174290
8 92.724125 7.198446 -0.533592 ... 0.500942
10 94.587712 7.628431 -0.855157 ... 0.571808
15 92.666900 8.162162 -0.596256 ... 0.609800
12 93.571468 6.715923 -1.310382 ... 0.499746
9 73.617773 1.283275 -0.176559 ... 0.162039
13 72.980170 1.733563 -0.169089 ... 0.218192
11 70.593648 1.455799 -0.991364 ... 0.267249
16 71.268228 1.688296 0.149827 ... 0.272076
17 74.732375 0.995570 -0.057076 ... 0.173023
18 75.005645 0.909686 4.142686 ... 0.251494
5 70.779953 4.773098 -1.899860 ... 0.773255
14 74.857807 2.759146 -2.745917 ... 0.388765
2 72.958267 2.394267 -0.230000 ... 0.206093
7 73.129881 1.990473 -0.959923 ... 0.223915
6 73.894805 2.227882 0.547178 ... 0.174199
3 72.129244 2.513562 -2.145414 ... 0.180008
MEAN(diameter_RL) STD(diameter_RL) MEAN(eccentricity) \
1 11.899994 0.348936 0.689786
4 11.935064 0.352203 0.692630
0 11.942165 0.386189 0.692055
8 13.469831 0.903365 0.749762
10 13.618790 0.856929 0.751709
15 13.567128 0.933170 0.758917
12 13.510144 0.754180 0.750687
9 11.618506 0.249626 0.719638
13 11.669006 0.227977 0.728585
11 11.246244 0.328627 0.702012
16 11.275181 0.260300 0.698106
17 12.063074 0.345358 0.754853
18 11.967497 0.381923 0.743363
5 12.190368 0.565430 0.779750
14 12.401970 0.406430 0.775455
2 12.298752 0.455764 0.786437
7 12.384761 0.445033 0.792261
6 12.449794 0.470167 0.792112
3 12.327045 0.417297 0.794967
STD(eccentricity) MEAN(orientation) STD(orientation) MEAN(solidity) \
1 0.032309 3.342223 1.895299 0.973535
4 0.031759 2.725679 1.980338 0.974296
0 0.028034 4.826952 2.124976 0.973148
8 0.061652 3.007144 1.340842 0.970252
10 0.060540 2.065212 1.229055 0.970512
15 0.066758 1.366771 1.115320 0.969417
12 0.055164 1.432686 1.105488 0.970806
9 0.026723 1.350991 0.866047 0.970433
13 0.027002 1.021736 0.860224 0.971586
11 0.046127 1.260142 1.145153 0.970805
16 0.041606 1.752418 1.216747 0.975077
17 0.027804 2.550164 1.247343 0.967420
18 0.040588 1.571435 1.604254 0.972454
5 0.071128 3.074997 1.954591 0.956469
14 0.041603 2.156050 1.223840 0.966862
2 0.025628 0.972269 0.813403 0.972373
7 0.026887 1.640786 1.149530 0.970194
6 0.023507 1.604021 1.084022 0.967781
3 0.019853 1.783156 0.920410 0.969491
STD(solidity) SUM(length)
1 0.009511 33.716889
4 0.007769 33.951292
0 0.006615 34.526392
8 0.010245 31.142010
10 0.010239 30.640014
15 0.010025 29.350071
12 0.009661 28.757132
9 0.008960 29.966024
13 0.007557 29.619905
11 0.008657 29.249095
16 0.009043 30.022830
17 0.011174 29.705806
18 0.008886 28.928858
5 0.019386 31.359579
14 0.013124 31.380837
2 0.010028 30.494727
7 0.011049 30.874411
6 0.010371 29.962644
3 0.009872 30.558270
[19 rows x 24 columns], 'GMT2w': Subject Session Timestamp \
0 1 1 2021-06-09 23:27:57
5 1 2 2021-06-09 23:28:30
1 1 3 2021-06-09 23:28:01
8 2 1 2021-06-09 23:44:35
9 2 2 2021-06-09 23:45:01
14 2 3 2021-06-09 23:53:03
11 2 4 2021-06-09 23:45:18
10 3 1 2021-06-09 23:45:12
13 3 2 2021-06-09 23:45:45
12 3 3 2021-06-09 23:45:36
15 3 4 2021-06-09 23:57:39
16 4 2 2021-06-09 23:58:05
17 4 3 2021-06-09 23:58:21
4 5 1 2021-06-09 23:28:25
2 6 1 2021-06-09 23:28:13
7 6 2 2021-06-09 23:28:34
6 6 3 2021-06-09 23:28:31
3 6 4 2021-06-09 23:28:22
SCT Version \
0 git-jca/3413-run-batch-session-c41958db922273a...
5 git-jca/3413-run-batch-session-c41958db922273a...
1 git-jca/3413-run-batch-session-c41958db922273a...
8 git-jca/3413-run-batch-session-c41958db922273a...
9 git-jca/3413-run-batch-session-c41958db922273a...
14 git-jca/3413-run-batch-session-c41958db922273a...
11 git-jca/3413-run-batch-session-c41958db922273a...
10 git-jca/3413-run-batch-session-c41958db922273a...
13 git-jca/3413-run-batch-session-c41958db922273a...
12 git-jca/3413-run-batch-session-c41958db922273a...
15 git-jca/3413-run-batch-session-c41958db922273a...
16 git-jca/3413-run-batch-session-c41958db922273a...
17 git-jca/3413-run-batch-session-c41958db922273a...
4 git-jca/3413-run-batch-session-c41958db922273a...
2 git-jca/3413-run-batch-session-c41958db922273a...
7 git-jca/3413-run-batch-session-c41958db922273a...
6 git-jca/3413-run-batch-session-c41958db922273a...
3 git-jca/3413-run-batch-session-c41958db922273a...
Filename Slice (I->S) VertLevel \
0 /Users/julien/temp/neuromod/data_processed/sub... 2:9 3:4
5 /Users/julien/temp/neuromod/data_processed/sub... 4:10 3:4
1 /Users/julien/temp/neuromod/data_processed/sub... 4:10 3:4
8 /Users/julien/temp/neuromod/data_processed/sub... 4:10 3:4
9 /Users/julien/temp/neuromod/data_processed/sub... 3:9 3:4
14 /Users/julien/temp/neuromod/data_processed/sub... 4:10 3:4
11 /Users/julien/temp/neuromod/data_processed/sub... 3:9 3:4
10 /Users/julien/temp/neuromod/data_processed/sub... 4:9 3:4
13 /Users/julien/temp/neuromod/data_processed/sub... 5:10 3:4
12 /Users/julien/temp/neuromod/data_processed/sub... 5:10 3:4
15 /Users/julien/temp/neuromod/data_processed/sub... 4:9 3:4
16 /Users/julien/temp/neuromod/data_processed/sub... 4:9 3:4
17 /Users/julien/temp/neuromod/data_processed/sub... 5:10 3:4
4 /Users/julien/temp/neuromod/data_processed/sub... 4:10 3:4
2 /Users/julien/temp/neuromod/data_processed/sub... 4:10 3:4
7 /Users/julien/temp/neuromod/data_processed/sub... 4:10 3:4
6 /Users/julien/temp/neuromod/data_processed/sub... 4:10 3:4
3 /Users/julien/temp/neuromod/data_processed/sub... 4:10 3:4
MEAN(area) STD(area) MEAN(angle_AP) ... STD(diameter_AP) \
0 15.781250 1.371800 0.0 ... 0.283857
5 15.928571 2.034147 0.0 ... 0.312646
1 17.000000 1.752549 0.0 ... 0.437912
8 19.821429 1.360897 0.0 ... 0.417456
9 20.000000 1.077365 0.0 ... 0.342271
14 19.214286 1.605952 0.0 ... 0.487494
11 20.464286 1.397885 0.0 ... 0.322935
10 18.208333 1.933351 0.0 ... 0.218711
13 17.333333 1.624466 0.0 ... 0.157746
12 16.625000 2.452677 0.0 ... 0.185884
15 16.958333 1.758412 0.0 ... 0.238859
16 17.041667 1.417279 0.0 ... 0.193646
17 17.333332 1.455354 0.0 ... 0.309761
4 16.214286 1.848883 0.0 ... 0.490131
2 16.642857 3.600241 0.0 ... 0.556421
7 17.392857 2.182958 0.0 ... 0.433186
6 16.321428 2.020936 0.0 ... 0.451914
3 16.535714 2.707228 0.0 ... 0.719459
MEAN(diameter_RL) STD(diameter_RL) MEAN(eccentricity) \
0 9.157261 0.632701 0.760794
5 8.912826 0.518961 0.755229
1 9.105736 0.577677 0.742294
8 11.544729 0.413976 0.882456
9 11.842302 0.579720 0.879404
14 11.589557 0.509289 0.880191
11 11.748837 0.339294 0.880092
10 9.713868 0.912814 0.809431
13 9.552361 0.850671 0.803472
12 9.541168 0.905707 0.803929
15 9.512255 0.787789 0.809049
16 9.258316 0.625445 0.800148
17 9.310330 0.966440 0.792127
4 9.916864 0.663039 0.848935
2 10.865812 0.972017 0.875254
7 11.029238 0.908874 0.877292
6 10.450533 0.889613 0.879650
3 10.447901 0.631897 0.896789
STD(eccentricity) MEAN(orientation) STD(orientation) MEAN(solidity) \
0 0.065413 9.239814 4.915181 0.398420
5 0.050143 7.501914 6.651370 0.402462
1 0.076859 8.999431 5.426012 0.412780
8 0.015014 2.491855 1.419888 0.400532
9 0.021123 2.516891 2.068491 0.380244
14 0.021772 3.755927 2.144876 0.392944
11 0.017030 1.848681 1.410178 0.390731
10 0.046939 2.111163 1.302024 0.441700
13 0.048638 3.743699 2.736344 0.431054
12 0.050888 3.033851 3.309783 0.423130
15 0.050811 2.475007 0.736044 0.427416
16 0.040699 3.309946 1.876603 0.438293
17 0.067271 5.133278 3.005962 0.452724
4 0.047865 3.056269 2.330227 0.420649
2 0.043939 1.272704 0.738812 0.392086
7 0.037499 1.582275 1.103783 0.406786
6 0.036167 1.582814 1.583200 0.423449
3 0.037479 3.565542 1.894078 0.461639
STD(solidity) SUM(length)
0 0.017171 40.000000
5 0.017327 34.999983
1 0.019752 35.000010
8 0.022981 35.000033
9 0.013678 34.999980
14 0.018671 35.000000
11 0.011656 35.000033
10 0.014227 29.999989
13 0.016436 30.000037
12 0.022843 29.999986
15 0.020870 29.999991
16 0.010648 30.000011
17 0.024747 30.000011
4 0.020092 34.999977
2 0.054614 34.999983
7 0.024975 34.999990
6 0.020716 35.000017
3 0.037115 35.000003
[18 rows x 24 columns]}